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Status
Public on Dec 07, 2010
Title
Burkitt MPI-123_sty
Sample type
genomic
Source name
Whole tissue of tumor biopsy
Organism
Homo sapiens
Characteristics
sample type: tumor tissue: tumor disease state: Burkitt lymphoma
Extracted molecule
genomic DNA
Extraction protocol
QiaAmp DNA Blood Kit
Label
Biotin
Label protocol
As per manufacturer (Affymetrix)
Hybridization protocol
DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol
The Arrays were washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
Description
Hybridized to 250K_Sty
Data processing
The CEL-Files were analyzed using the BRLMM-algorithm to produce genotype calls, stored in the corresponding CHP-Files. CEL- and CHP-Format by Affymetrix
Submission date
Apr 29, 2010
Last update date
Dec 07, 2010
Contact name
Rene Scholtysik
E-mail(s)
rene.scholtysik@uni-due.de
Organization name
University Hospital Essen
Department
IFZ
Street address
Virchowstrasse 173
City
Essen
ZIP/Postal code
45127
Country
Germany
Platform ID
GPL3720
Series (1)
GSE21597
Affymetrix SNP array data for Burkitt lymphoma samples
Data table header descriptions
ID_REF
VALUE
Genotypes: AA, AB, BB, No Call
CONFIDENCE
RAS1
Relative allele signal for the data in the first probe group
RAS2
Relative allele signal for the data in the second probe group
P-VALUE AA
P-VALUE AB
P-VALUE BB
P-VALUE NO CALL
Data table
ID_REF
VALUE
CONFIDENCE
RAS1
RAS2
P-VALUE AA
P-VALUE AB
P-VALUE BB
P-VALUE NO CALL
AFFX-5Q-123
No Call
321.5
0
0
0
0
0
0
AFFX-5Q-456
No Call
374.5
0
0
0
0
0
0
AFFX-5Q-789
No Call
614.5
0
0
0
0
0
0
AFFX-5Q-ABC
No Call
880.5
0
0
0
0
0
0
AFFX-barcodeA
No Call
175
0
0
0
0
0
0
AFFX-barcodeB
No Call
348
0
0
0
0
0
0
AFFX-barcodeC
No Call
89.5
0
0
0
0
0
0
AFFX-barcodeD
No Call
93.5
0
0
0
0
0
0
AFFX-barcodeE
No Call
102
0
0
0
0
0
0
AFFX-barcodeF
No Call
128.5
0
0
0
0
0
0
AFFX-barcodeG
No Call
130
0
0
0
0
0
0
AFFX-barcodeH
No Call
131.5
0
0
0
0
0
0
AFFX-barcodeI
No Call
147.5
0
0
0
0
0
0
AFFX-barcodeJ
No Call
134.5
0
0
0
0
0
0
AFFX-barcodeK
No Call
111
0
0
0
0
0
0
AFFX-barcodeL
No Call
112
0
0
0
0
0
0
AFFX-barcodeM
No Call
106.5
0
0
0
0
0
0
AFFX-barcodeN
No Call
193.5
0
0
0
0
0
0
AFFX-barcodeO
No Call
119
0
0
0
0
0
0
AFFX-barcodeP
No Call
129.5
0
0
0
0
0
0
Total number of rows: 238378 Table truncated, full table size 18541 Kbytes .Supplementary file
Size
Download
File type/resource
GSM539182_MPI-123_sty.CEL.gz
25.2 Mb
(ftp) (http)
CEL
GSM539182_Tumor_MPI-123.chp.gz
3.8 Mb
(ftp) (http)
CHP
Processed data included within Sample table
Processed data provided as supplementary file